Figure 5. Changes of cyAbrB2 binding pattern on entry to the microoxic condition.

(A) Scatter plot showing changes of the binding signal by 1 hr cultivation in the microoxic condition. The binding signal of each 100 bp window is plotted. Red dots are cyAbrB2 binding regions in either aerobic or microoxic conditions. The dotty lines indicate Log2 fold enrichment of 0.5, 0, and –0.5 between aerobic and microoxic conditions. (B) Distribution of cyAbrB2 around hox operon and nifJ operon. ChIP-seq data in aerobic (L + O₂) and dark microoxic (D − O₂) conditions are overlayed. The bars below the graph indicate the binding regions of each protein. (C) Quantification for IP efficiency of cyAbrB2 (top) and cyAbrB1 (middle) by qPCR in the aerobic and microoxic conditions. The position of primers and ChIP-seq data of cyAbrB2 are shown at the bottom. Scores are normalized by the IP% at position #2 in the aerobic condition. Error bars represent standard deviation (n=3).

Figure 5—figure supplement 1. Alteration of cyAbrB2 binding to genome under the microoxic condition.

(A) Amount of precipitated DNA by cyAbrB2 ChIP. Three experiments were performed in the aerobic and microoxic conditions. (B) Western blot images of cyAbrB2-3FLAG. Proteins were extracted in the aerobic condition and 1 and 4 hr incubation under microoxic conditions. The total protein concentration of each sample was adjusted to 4 mg/mL, measured by the BCA method. Quantification of cyAbrB2 from western blot image was performed by ImageJ (ver. 2.0.0-rc-65) and plotted in the right graph.

Figure 5—figure supplement 2. Alteration of cyAbrB1 binding to genome under the microoxic condition.

(A) Amount of precipitated DNA by cyAbrB1 ChIP. Three experiments were performed in the aerobic and microoxic conditions. (B) Western blot images of cyAbrB1-3FLAG. The experiment and data analysis were performed as in Figure 1.